Xijin Ge

The paper reassesses the prevalence of orphan genes by analyzing a large bacterial dataset, finding that many previously classified orphan genes have homologues in other taxa and proposing a new term, Cryptogenic Gene Candidates.

The paper compares promoter activities across young mouse L1 subfamilies and identifies the differential contribution of individual monomers and the tether sequence to promoter activity.

ShinyGO provides a graphical tool for enrichment analysis of gene lists across plant and animal species using GO and other annotations.

iDEP is a web application that streamlines RNA-Seq analysis by integrating R/Bioconductor packages, annotation databases, and web services for differential expression and pathway analysis.

The paper creates a gene set database for pathway analysis in mouse, enabling pathway analysis and meta-analysis of gene expression signatures.